I am building an RNA CG model using a martinize-nucleotide.py script. There is no TER or any other identifier to mark a new chain.
For some residues in this structure, the distance between O3' and P atoms is >=5 Angstrom. I think this makes a martinize-nucleotide.py script to make a new chain while building a coarse-grain model.
If this is the case, please can you point me to the correct option in the script to change the cutoff?